HEADER TRANSFERASE 06-FEB-19 6NW7 TITLE CRYSTAL STRUCTURE OF TRMD, A TRNA-(N1G37) METHYLTRANSFERASE, FROM TITLE 2 MYCOBACTERIUM ABSCESSUS IN COMPLEX WITH S-ADENOSYL-L-HOMOCYSTEINE COMPND MOL_ID: 1; COMPND 2 MOLECULE: TRNA (GUANINE-N(1)-)-METHYLTRANSFERASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: M1G-METHYLTRANSFERASE,TRNA [GM37] METHYLTRANSFERASE; COMPND 5 EC: 2.1.1.228; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MYCOBACTERIUM ABSCESSUS; SOURCE 3 ORGANISM_TAXID: 36809; SOURCE 4 GENE: TRMD, MAB_3226C; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS TRMD, TRNA METHYLTRANSFERASE, SPOUT METHYLTRANSFERASE, TRANSFERASE EXPDTA X-RAY DIFFRACTION AUTHOR S.E.THOMAS,A.J.WHITEHOUSE,A.G.COYNE,C.ABELL,V.MENDES,T.L.BLUNDELL REVDAT 4 24-JAN-24 6NW7 1 REMARK REVDAT 3 26-AUG-20 6NW7 1 JRNL REVDAT 2 05-AUG-20 6NW7 1 JRNL REVDAT 1 19-FEB-20 6NW7 0 JRNL AUTH S.E.THOMAS,A.J.WHITEHOUSE,K.BROWN,S.BURBAUD, JRNL AUTH 2 J.M.BELARDINELLI,J.SANGEN,R.LAHIRI,M.D.J.LIBARDO,P.GUPTA, JRNL AUTH 3 S.MALHOTRA,H.I.M.BOSHOFF,M.JACKSON,C.ABELL,A.G.COYNE, JRNL AUTH 4 T.L.BLUNDELL,R.A.FLOTO,V.MENDES JRNL TITL FRAGMENT-BASED DISCOVERY OF A NEW CLASS OF INHIBITORS JRNL TITL 2 TARGETING MYCOBACTERIAL TRNA MODIFICATION. JRNL REF NUCLEIC ACIDS RES. V. 48 8099 2020 JRNL REFN ESSN 1362-4962 JRNL PMID 32602532 JRNL DOI 10.1093/NAR/GKAA539 REMARK 2 REMARK 2 RESOLUTION. 1.48 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.9_1692 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.48 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 58.48 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 87010 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.179 REMARK 3 R VALUE (WORKING SET) : 0.178 REMARK 3 FREE R VALUE : 0.195 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.860 REMARK 3 FREE R VALUE TEST SET COUNT : 4233 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 58.5244 - 4.6008 0.99 2941 161 0.1742 0.1902 REMARK 3 2 4.6008 - 3.6519 1.00 2861 150 0.1546 0.1578 REMARK 3 3 3.6519 - 3.1904 1.00 2813 138 0.1743 0.2110 REMARK 3 4 3.1904 - 2.8987 1.00 2767 157 0.1933 0.2213 REMARK 3 5 2.8987 - 2.6909 1.00 2823 107 0.1916 0.2120 REMARK 3 6 2.6909 - 2.5323 1.00 2767 160 0.1834 0.1870 REMARK 3 7 2.5323 - 2.4054 1.00 2791 128 0.1754 0.1919 REMARK 3 8 2.4054 - 2.3007 1.00 2784 128 0.1794 0.1837 REMARK 3 9 2.3007 - 2.2121 1.00 2744 158 0.1704 0.1814 REMARK 3 10 2.2121 - 2.1358 1.00 2779 128 0.1750 0.2146 REMARK 3 11 2.1358 - 2.0690 1.00 2755 134 0.1787 0.2263 REMARK 3 12 2.0690 - 2.0099 1.00 2741 148 0.1781 0.1910 REMARK 3 13 2.0099 - 1.9570 1.00 2746 145 0.1653 0.1765 REMARK 3 14 1.9570 - 1.9092 1.00 2716 161 0.1728 0.1768 REMARK 3 15 1.9092 - 1.8658 1.00 2737 145 0.1781 0.1996 REMARK 3 16 1.8658 - 1.8261 1.00 2778 130 0.1801 0.2005 REMARK 3 17 1.8261 - 1.7896 1.00 2718 140 0.1872 0.1964 REMARK 3 18 1.7896 - 1.7558 1.00 2729 140 0.1845 0.1838 REMARK 3 19 1.7558 - 1.7244 1.00 2754 134 0.1852 0.1873 REMARK 3 20 1.7244 - 1.6952 1.00 2745 137 0.1874 0.2008 REMARK 3 21 1.6952 - 1.6679 1.00 2724 144 0.1913 0.2042 REMARK 3 22 1.6679 - 1.6422 1.00 2752 134 0.1926 0.1979 REMARK 3 23 1.6422 - 1.6180 1.00 2738 131 0.1952 0.2132 REMARK 3 24 1.6180 - 1.5953 1.00 2691 158 0.2008 0.2265 REMARK 3 25 1.5953 - 1.5737 1.00 2746 128 0.2057 0.2404 REMARK 3 26 1.5737 - 1.5533 1.00 2747 144 0.2169 0.2323 REMARK 3 27 1.5533 - 1.5338 1.00 2683 153 0.2185 0.2322 REMARK 3 28 1.5338 - 1.5154 1.00 2749 137 0.2249 0.2465 REMARK 3 29 1.5154 - 1.4977 1.00 2734 137 0.2397 0.2666 REMARK 3 30 1.4977 - 1.4809 1.00 2724 138 0.2615 0.2563 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 18.080 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 22.68 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.59 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.008 3439 REMARK 3 ANGLE : 1.089 4718 REMARK 3 CHIRALITY : 0.051 535 REMARK 3 PLANARITY : 0.006 608 REMARK 3 DIHEDRAL : 14.252 1261 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 14 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID -1 THROUGH 18 ) REMARK 3 ORIGIN FOR THE GROUP (A): -32.9222 -12.9599 22.7336 REMARK 3 T TENSOR REMARK 3 T11: 0.2980 T22: 0.2667 REMARK 3 T33: 0.2054 T12: 0.0102 REMARK 3 T13: 0.0161 T23: 0.0107 REMARK 3 L TENSOR REMARK 3 L11: 0.1362 L22: 0.0833 REMARK 3 L33: 0.2693 L12: -0.1303 REMARK 3 L13: 0.1814 L23: -0.1764 REMARK 3 S TENSOR REMARK 3 S11: -0.0504 S12: -0.2624 S13: 0.0370 REMARK 3 S21: 0.3414 S22: 0.0195 S23: 0.2136 REMARK 3 S31: -0.2069 S32: -0.1986 S33: -0.0002 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 19 THROUGH 48 ) REMARK 3 ORIGIN FOR THE GROUP (A): -38.9682 -14.3382 20.1820 REMARK 3 T TENSOR REMARK 3 T11: 0.2656 T22: 0.2607 REMARK 3 T33: 0.2245 T12: 0.0132 REMARK 3 T13: 0.0465 T23: 0.0122 REMARK 3 L TENSOR REMARK 3 L11: 0.6094 L22: 0.2472 REMARK 3 L33: 0.2499 L12: -0.2233 REMARK 3 L13: 0.0847 L23: -0.2642 REMARK 3 S TENSOR REMARK 3 S11: 0.0053 S12: -0.1508 S13: 0.0344 REMARK 3 S21: 0.1949 S22: 0.0290 S23: 0.2134 REMARK 3 S31: -0.0077 S32: -0.2704 S33: 0.0001 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 49 THROUGH 83 ) REMARK 3 ORIGIN FOR THE GROUP (A): -35.1120 -17.3160 6.4766 REMARK 3 T TENSOR REMARK 3 T11: 0.1725 T22: 0.2016 REMARK 3 T33: 0.2231 T12: -0.0051 REMARK 3 T13: -0.0034 T23: -0.0092 REMARK 3 L TENSOR REMARK 3 L11: 0.5087 L22: 0.0349 REMARK 3 L33: 1.0014 L12: 0.1380 REMARK 3 L13: 0.3500 L23: 0.1904 REMARK 3 S TENSOR REMARK 3 S11: 0.0322 S12: 0.0362 S13: -0.1051 REMARK 3 S21: 0.0856 S22: 0.0926 S23: -0.0264 REMARK 3 S31: 0.0904 S32: -0.0216 S33: 0.0002 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 84 THROUGH 100 ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.2687 -4.2161 12.9326 REMARK 3 T TENSOR REMARK 3 T11: 0.2294 T22: 0.2092 REMARK 3 T33: 0.2206 T12: -0.0120 REMARK 3 T13: -0.0076 T23: -0.0265 REMARK 3 L TENSOR REMARK 3 L11: 0.3149 L22: 0.0036 REMARK 3 L33: 0.2201 L12: 0.0350 REMARK 3 L13: 0.0199 L23: -0.0559 REMARK 3 S TENSOR REMARK 3 S11: -0.0775 S12: 0.0741 S13: 0.0908 REMARK 3 S21: -0.1161 S22: 0.0014 S23: 0.0193 REMARK 3 S31: -0.2731 S32: 0.2209 S33: -0.0000 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 101 THROUGH 155 ) REMARK 3 ORIGIN FOR THE GROUP (A): -27.3202 -11.8745 11.7883 REMARK 3 T TENSOR REMARK 3 T11: 0.1942 T22: 0.1845 REMARK 3 T33: 0.1921 T12: 0.0128 REMARK 3 T13: 0.0000 T23: -0.0100 REMARK 3 L TENSOR REMARK 3 L11: 0.9836 L22: 0.2388 REMARK 3 L33: 0.1822 L12: 0.0684 REMARK 3 L13: 0.1155 L23: 0.1758 REMARK 3 S TENSOR REMARK 3 S11: 0.0068 S12: 0.0123 S13: -0.0399 REMARK 3 S21: 0.0201 S22: 0.0353 S23: -0.0184 REMARK 3 S31: -0.0246 S32: 0.0061 S33: 0.0000 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 156 THROUGH 178 ) REMARK 3 ORIGIN FOR THE GROUP (A): -19.8520 0.6689 27.1895 REMARK 3 T TENSOR REMARK 3 T11: 0.5123 T22: 0.2996 REMARK 3 T33: 0.2201 T12: 0.0205 REMARK 3 T13: 0.2162 T23: -0.3334 REMARK 3 L TENSOR REMARK 3 L11: 0.1950 L22: 0.4288 REMARK 3 L33: 0.9020 L12: -0.1674 REMARK 3 L13: -0.0411 L23: -0.2479 REMARK 3 S TENSOR REMARK 3 S11: 0.1198 S12: -0.2218 S13: 0.1796 REMARK 3 S21: 0.2142 S22: -0.3861 S23: 0.1874 REMARK 3 S31: -0.0604 S32: 0.1573 S33: -0.4993 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 179 THROUGH 203 ) REMARK 3 ORIGIN FOR THE GROUP (A): 1.8182 -4.9148 40.0682 REMARK 3 T TENSOR REMARK 3 T11: 0.2723 T22: 0.2361 REMARK 3 T33: 0.2246 T12: 0.0437 REMARK 3 T13: -0.0370 T23: -0.0169 REMARK 3 L TENSOR REMARK 3 L11: 0.4047 L22: 0.3341 REMARK 3 L33: 0.0405 L12: 0.3863 REMARK 3 L13: 0.0658 L23: 0.0840 REMARK 3 S TENSOR REMARK 3 S11: 0.0491 S12: -0.0297 S13: -0.1575 REMARK 3 S21: 0.2445 S22: 0.0922 S23: -0.1559 REMARK 3 S31: 0.0629 S32: 0.1584 S33: 0.0001 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 204 THROUGH 227 ) REMARK 3 ORIGIN FOR THE GROUP (A): 2.8499 -2.2330 24.5687 REMARK 3 T TENSOR REMARK 3 T11: 0.2267 T22: 0.3046 REMARK 3 T33: 0.2112 T12: -0.0469 REMARK 3 T13: 0.0381 T23: -0.0391 REMARK 3 L TENSOR REMARK 3 L11: 0.3600 L22: 0.1644 REMARK 3 L33: 0.1511 L12: -0.2815 REMARK 3 L13: 0.3681 L23: 0.1232 REMARK 3 S TENSOR REMARK 3 S11: -0.0500 S12: 0.1306 S13: -0.0568 REMARK 3 S21: -0.0435 S22: 0.1834 S23: -0.1775 REMARK 3 S31: -0.0609 S32: 0.3091 S33: 0.0001 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 0 THROUGH 29 ) REMARK 3 ORIGIN FOR THE GROUP (A): -20.7193 -24.0908 30.3810 REMARK 3 T TENSOR REMARK 3 T11: 0.3148 T22: 0.3167 REMARK 3 T33: 0.3619 T12: -0.0265 REMARK 3 T13: -0.0363 T23: -0.0041 REMARK 3 L TENSOR REMARK 3 L11: 0.3304 L22: 0.3670 REMARK 3 L33: 0.2480 L12: -0.2209 REMARK 3 L13: -0.1616 L23: -0.1737 REMARK 3 S TENSOR REMARK 3 S11: 0.1284 S12: 0.0798 S13: -0.4006 REMARK 3 S21: -0.1186 S22: -0.0892 S23: 0.5050 REMARK 3 S31: 0.3601 S32: -0.3833 S33: 0.0011 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 30 THROUGH 48 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.1910 -18.4961 43.3180 REMARK 3 T TENSOR REMARK 3 T11: 0.4234 T22: 0.3503 REMARK 3 T33: 0.2046 T12: -0.0358 REMARK 3 T13: 0.1199 T23: 0.0317 REMARK 3 L TENSOR REMARK 3 L11: 0.5444 L22: 0.1263 REMARK 3 L33: 0.0150 L12: -0.2380 REMARK 3 L13: 0.0135 L23: -0.0408 REMARK 3 S TENSOR REMARK 3 S11: 0.2712 S12: -0.4031 S13: -0.2303 REMARK 3 S21: 0.4781 S22: -0.2798 S23: 0.5096 REMARK 3 S31: 0.1355 S32: -0.4978 S33: 0.0327 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 49 THROUGH 131 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.3943 -17.4197 32.2488 REMARK 3 T TENSOR REMARK 3 T11: 0.2407 T22: 0.1934 REMARK 3 T33: 0.2078 T12: 0.0407 REMARK 3 T13: -0.0166 T23: -0.0027 REMARK 3 L TENSOR REMARK 3 L11: 0.6199 L22: 0.6318 REMARK 3 L33: 0.8380 L12: 0.4934 REMARK 3 L13: 0.3950 L23: 0.5604 REMARK 3 S TENSOR REMARK 3 S11: 0.0096 S12: -0.0658 S13: -0.0920 REMARK 3 S21: 0.1686 S22: 0.0279 S23: -0.0411 REMARK 3 S31: 0.1086 S32: 0.0664 S33: 0.0000 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 132 THROUGH 182 ) REMARK 3 ORIGIN FOR THE GROUP (A): -16.3183 -19.6537 18.1376 REMARK 3 T TENSOR REMARK 3 T11: 0.1809 T22: 0.1861 REMARK 3 T33: 0.2417 T12: 0.0034 REMARK 3 T13: 0.0111 T23: -0.0089 REMARK 3 L TENSOR REMARK 3 L11: 0.4104 L22: 0.1607 REMARK 3 L33: 0.3404 L12: 0.1393 REMARK 3 L13: 0.0865 L23: -0.2201 REMARK 3 S TENSOR REMARK 3 S11: 0.0147 S12: -0.0604 S13: -0.1044 REMARK 3 S21: 0.0884 S22: -0.0323 S23: -0.0313 REMARK 3 S31: -0.0032 S32: -0.0630 S33: -0.0000 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 183 THROUGH 222 ) REMARK 3 ORIGIN FOR THE GROUP (A): -26.2451 -21.3916 -6.2580 REMARK 3 T TENSOR REMARK 3 T11: 0.2284 T22: 0.3744 REMARK 3 T33: 0.2647 T12: -0.0312 REMARK 3 T13: 0.0367 T23: -0.0952 REMARK 3 L TENSOR REMARK 3 L11: 0.5421 L22: 0.7631 REMARK 3 L33: 0.3153 L12: -0.0794 REMARK 3 L13: 0.5508 L23: 0.2767 REMARK 3 S TENSOR REMARK 3 S11: -0.0273 S12: 0.4246 S13: -0.3288 REMARK 3 S21: -0.2658 S22: 0.1440 S23: -0.1017 REMARK 3 S31: -0.1045 S32: 0.2240 S33: 0.0005 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 223 THROUGH 233 ) REMARK 3 ORIGIN FOR THE GROUP (A): -8.3713 -8.9514 1.8083 REMARK 3 T TENSOR REMARK 3 T11: 0.2376 T22: 0.2806 REMARK 3 T33: 0.3585 T12: 0.0309 REMARK 3 T13: 0.0596 T23: -0.0624 REMARK 3 L TENSOR REMARK 3 L11: 0.1033 L22: 0.0286 REMARK 3 L33: 0.0314 L12: 0.0298 REMARK 3 L13: 0.0798 L23: -0.0091 REMARK 3 S TENSOR REMARK 3 S11: 0.0813 S12: -0.2826 S13: 0.5488 REMARK 3 S21: 0.0538 S22: 0.1139 S23: -0.3356 REMARK 3 S31: -0.2219 S32: -0.2941 S33: 0.0000 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 6NW7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 06-FEB-19. REMARK 100 THE DEPOSITION ID IS D_1000239545. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-OCT-15 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9282 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.15 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 87094 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.480 REMARK 200 RESOLUTION RANGE LOW (A) : 88.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.700 REMARK 200 R MERGE (I) : 0.03200 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 28.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.48 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.56 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 7.70 REMARK 200 R MERGE FOR SHELL (I) : 0.72000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER 2.5.7 REMARK 200 STARTING MODEL: 6NVR REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.86 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.45 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.08M SODIUM CACODYLATE PH 6.5 -7.0, 1 REMARK 280 -2 M AMMONIUM SULPHATE, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 292K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 37.66700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 44.00250 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 39.12700 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 44.00250 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 37.66700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 39.12700 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7010 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19220 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -25.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 LEU A 164 REMARK 465 SER A 165 REMARK 465 ALA A 166 REMARK 465 GLN A 167 REMARK 465 GLU A 168 REMARK 465 ASP A 169 REMARK 465 SER A 170 REMARK 465 HIS A 171 REMARK 465 SER A 172 REMARK 465 GLU A 173 REMARK 465 GLY A 174 REMARK 465 MET A 175 REMARK 465 ALA A 176 REMARK 465 GLY A 228 REMARK 465 PHE A 229 REMARK 465 ASP A 230 REMARK 465 SER A 231 REMARK 465 PRO A 232 REMARK 465 THR A 233 REMARK 465 GLY A 234 REMARK 465 GLU A 235 REMARK 465 HIS A 236 REMARK 465 GLY A 237 REMARK 465 GLY A 238 REMARK 465 ASP A 239 REMARK 465 GLY A 240 REMARK 465 LEU A 241 REMARK 465 SER A 242 REMARK 465 GLY B -1 REMARK 465 ALA B 24 REMARK 465 ILE B 25 REMARK 465 ASP B 26 REMARK 465 ALA B 27 REMARK 465 LEU B 160 REMARK 465 GLY B 161 REMARK 465 ASN B 162 REMARK 465 ALA B 163 REMARK 465 LEU B 164 REMARK 465 SER B 165 REMARK 465 ALA B 166 REMARK 465 GLN B 167 REMARK 465 GLU B 168 REMARK 465 ASP B 169 REMARK 465 SER B 170 REMARK 465 HIS B 171 REMARK 465 SER B 172 REMARK 465 GLU B 173 REMARK 465 GLY B 174 REMARK 465 MET B 175 REMARK 465 ALA B 176 REMARK 465 GLY B 234 REMARK 465 GLU B 235 REMARK 465 HIS B 236 REMARK 465 GLY B 237 REMARK 465 GLY B 238 REMARK 465 ASP B 239 REMARK 465 GLY B 240 REMARK 465 LEU B 241 REMARK 465 SER B 242 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 GLN A 14 OE1 NE2 REMARK 470 GLN A 18 CD OE1 NE2 REMARK 470 LYS A 23 CG CD CE NZ REMARK 470 GLU A 180 CD OE1 OE2 REMARK 470 GLU B 11 CG CD OE1 OE2 REMARK 470 GLN B 14 CG CD OE1 NE2 REMARK 470 ARG B 17 CG CD NE CZ NH1 NH2 REMARK 470 SER B 19 OG REMARK 470 LEU B 20 CG CD1 CD2 REMARK 470 LYS B 23 CG CD CE NZ REMARK 470 LEU B 29 CG CD1 CD2 REMARK 470 ASP B 31 CG OD1 OD2 REMARK 470 ARG B 39 CG CD NE CZ NH1 NH2 REMARK 470 VAL B 44 CG1 CG2 REMARK 470 HIS B 45 CG ND1 CD2 CE1 NE2 REMARK 470 LYS B 46 CG CD CE NZ REMARK 470 VAL B 159 CG1 CG2 REMARK 470 GLN B 217 CD OE1 NE2 REMARK 470 THR B 233 OG1 CG2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 TYR A 111 -131.70 59.34 REMARK 500 GLN B 18 2.65 -152.48 REMARK 500 LEU B 20 145.45 -173.82 REMARK 500 ASP B 43 156.67 -40.31 REMARK 500 TYR B 111 -134.56 55.01 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 577 DISTANCE = 6.55 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SAH A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SAH B 301 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6NVR RELATED DB: PDB DBREF 6NW7 A 1 242 UNP B1MDI3 B1MDI3_MYCA9 1 242 DBREF 6NW7 B 1 242 UNP B1MDI3 B1MDI3_MYCA9 1 242 SEQADV 6NW7 GLY A -1 UNP B1MDI3 EXPRESSION TAG SEQADV 6NW7 SER A 0 UNP B1MDI3 EXPRESSION TAG SEQADV 6NW7 GLY B -1 UNP B1MDI3 EXPRESSION TAG SEQADV 6NW7 SER B 0 UNP B1MDI3 EXPRESSION TAG SEQRES 1 A 244 GLY SER MET LYS ILE ASP VAL VAL THR ILE PHE PRO GLU SEQRES 2 A 244 TYR LEU GLN PRO VAL ARG GLN SER LEU PRO GLY LYS ALA SEQRES 3 A 244 ILE ASP ALA GLY LEU VAL ASP VAL ALA VAL HIS ASP LEU SEQRES 4 A 244 ARG ARG TRP THR HIS ASP VAL HIS LYS SER VAL ASP ASP SEQRES 5 A 244 SER PRO TYR GLY GLY GLY PRO GLY MET VAL MET LYS PRO SEQRES 6 A 244 THR VAL TRP GLY ASP ALA LEU ASP GLU ILE CYS THR SER SEQRES 7 A 244 GLU THR LEU LEU VAL VAL PRO THR PRO ALA GLY TYR PRO SEQRES 8 A 244 PHE THR GLN GLU THR ALA TRP GLN TRP SER THR GLU ASP SEQRES 9 A 244 HIS LEU VAL ILE ALA CYS GLY ARG TYR GLU GLY ILE ASP SEQRES 10 A 244 GLN ARG VAL ALA ASP ASP ALA ALA THR ARG MET ARG VAL SEQRES 11 A 244 ARG GLU VAL SER ILE GLY ASP TYR VAL LEU ASN GLY GLY SEQRES 12 A 244 GLU ALA ALA ALA LEU VAL ILE ILE GLU ALA VAL LEU ARG SEQRES 13 A 244 LEU VAL PRO GLY VAL LEU GLY ASN ALA LEU SER ALA GLN SEQRES 14 A 244 GLU ASP SER HIS SER GLU GLY MET ALA SER LEU LEU GLU SEQRES 15 A 244 GLY PRO SER TYR THR ARG PRO PRO SER TRP ARG GLY MET SEQRES 16 A 244 ASP VAL PRO PRO VAL LEU LEU SER GLY ASP HIS ALA LYS SEQRES 17 A 244 ILE ALA ALA TRP ARG ALA GLU GLN SER ARG GLN ARG THR SEQRES 18 A 244 ILE GLU ARG ARG PRO ASP LEU LEU GLY PHE ASP SER PRO SEQRES 19 A 244 THR GLY GLU HIS GLY GLY ASP GLY LEU SER SEQRES 1 B 244 GLY SER MET LYS ILE ASP VAL VAL THR ILE PHE PRO GLU SEQRES 2 B 244 TYR LEU GLN PRO VAL ARG GLN SER LEU PRO GLY LYS ALA SEQRES 3 B 244 ILE ASP ALA GLY LEU VAL ASP VAL ALA VAL HIS ASP LEU SEQRES 4 B 244 ARG ARG TRP THR HIS ASP VAL HIS LYS SER VAL ASP ASP SEQRES 5 B 244 SER PRO TYR GLY GLY GLY PRO GLY MET VAL MET LYS PRO SEQRES 6 B 244 THR VAL TRP GLY ASP ALA LEU ASP GLU ILE CYS THR SER SEQRES 7 B 244 GLU THR LEU LEU VAL VAL PRO THR PRO ALA GLY TYR PRO SEQRES 8 B 244 PHE THR GLN GLU THR ALA TRP GLN TRP SER THR GLU ASP SEQRES 9 B 244 HIS LEU VAL ILE ALA CYS GLY ARG TYR GLU GLY ILE ASP SEQRES 10 B 244 GLN ARG VAL ALA ASP ASP ALA ALA THR ARG MET ARG VAL SEQRES 11 B 244 ARG GLU VAL SER ILE GLY ASP TYR VAL LEU ASN GLY GLY SEQRES 12 B 244 GLU ALA ALA ALA LEU VAL ILE ILE GLU ALA VAL LEU ARG SEQRES 13 B 244 LEU VAL PRO GLY VAL LEU GLY ASN ALA LEU SER ALA GLN SEQRES 14 B 244 GLU ASP SER HIS SER GLU GLY MET ALA SER LEU LEU GLU SEQRES 15 B 244 GLY PRO SER TYR THR ARG PRO PRO SER TRP ARG GLY MET SEQRES 16 B 244 ASP VAL PRO PRO VAL LEU LEU SER GLY ASP HIS ALA LYS SEQRES 17 B 244 ILE ALA ALA TRP ARG ALA GLU GLN SER ARG GLN ARG THR SEQRES 18 B 244 ILE GLU ARG ARG PRO ASP LEU LEU GLY PHE ASP SER PRO SEQRES 19 B 244 THR GLY GLU HIS GLY GLY ASP GLY LEU SER HET SAH A 301 26 HET SO4 A 302 5 HET SAH B 301 26 HETNAM SAH S-ADENOSYL-L-HOMOCYSTEINE HETNAM SO4 SULFATE ION FORMUL 3 SAH 2(C14 H20 N6 O5 S) FORMUL 4 SO4 O4 S 2- FORMUL 6 HOH *314(H2 O) HELIX 1 AA1 PHE A 9 TYR A 12 5 4 HELIX 2 AA2 LEU A 13 SER A 19 1 7 HELIX 3 AA3 PRO A 21 ALA A 27 1 7 HELIX 4 AA4 ARG A 38 THR A 41 5 4 HELIX 5 AA5 LYS A 62 CYS A 74 1 13 HELIX 6 AA6 THR A 91 SER A 99 1 9 HELIX 7 AA7 GLN A 116 ALA A 123 1 8 HELIX 8 AA8 GLY A 141 ARG A 154 1 14 HELIX 9 AA9 PRO A 196 SER A 201 5 6 HELIX 10 AB1 ASP A 203 ARG A 223 1 21 HELIX 11 AB2 PRO A 224 LEU A 227 5 4 HELIX 12 AB3 PHE B 9 SER B 19 5 11 HELIX 13 AB4 ARG B 38 THR B 41 5 4 HELIX 14 AB5 LYS B 62 CYS B 74 1 13 HELIX 15 AB6 THR B 91 SER B 99 1 9 HELIX 16 AB7 GLN B 116 ALA B 123 1 8 HELIX 17 AB8 GLY B 141 ARG B 154 1 14 HELIX 18 AB9 PRO B 196 SER B 201 5 6 HELIX 19 AC1 ASP B 203 ARG B 223 1 21 HELIX 20 AC2 PRO B 224 GLY B 228 5 5 SHEET 1 AA1 6 VAL A 30 ASP A 36 0 SHEET 2 AA1 6 MET A 1 THR A 7 1 N VAL A 5 O HIS A 35 SHEET 3 AA1 6 HIS A 103 ALA A 107 1 O ILE A 106 N ASP A 4 SHEET 4 AA1 6 LEU A 79 PRO A 83 1 N VAL A 81 O VAL A 105 SHEET 5 AA1 6 ARG A 127 SER A 132 1 O ARG A 129 N LEU A 80 SHEET 6 AA1 6 TYR A 88 PRO A 89 1 N TYR A 88 O GLU A 130 SHEET 1 AA2 2 ASP A 49 ASP A 50 0 SHEET 2 AA2 2 VAL A 60 MET A 61 -1 O VAL A 60 N ASP A 50 SHEET 1 AA3 2 SER A 189 TRP A 190 0 SHEET 2 AA3 2 MET A 193 ASP A 194 -1 O MET A 193 N TRP A 190 SHEET 1 AA4 6 VAL B 30 ASP B 36 0 SHEET 2 AA4 6 MET B 1 THR B 7 1 N VAL B 5 O HIS B 35 SHEET 3 AA4 6 HIS B 103 ALA B 107 1 O ILE B 106 N ASP B 4 SHEET 4 AA4 6 LEU B 79 PRO B 83 1 N VAL B 81 O VAL B 105 SHEET 5 AA4 6 ARG B 127 SER B 132 1 O ARG B 129 N LEU B 80 SHEET 6 AA4 6 TYR B 88 PRO B 89 1 N TYR B 88 O GLU B 130 SHEET 1 AA5 2 ASP B 49 ASP B 50 0 SHEET 2 AA5 2 VAL B 60 MET B 61 -1 O VAL B 60 N ASP B 50 SHEET 1 AA6 2 SER B 189 TRP B 190 0 SHEET 2 AA6 2 MET B 193 ASP B 194 -1 O MET B 193 N TRP B 190 CISPEP 1 ARG A 186 PRO A 187 0 2.66 CISPEP 2 ARG B 186 PRO B 187 0 1.43 SITE 1 AC1 18 PRO A 83 THR A 84 PRO A 85 GLY A 109 SITE 2 AC1 18 TYR A 111 GLU A 112 GLY A 113 SER A 132 SITE 3 AC1 18 ILE A 133 GLY A 134 TYR A 136 LEU A 138 SITE 4 AC1 18 GLY A 140 GLY A 141 HOH A 422 HOH A 431 SITE 5 AC1 18 GLU B 180 HOH B 484 SITE 1 AC2 8 ALA A 123 ARG A 125 MET A 126 ARG A 127 SITE 2 AC2 8 ARG A 186 HOH A 411 SER B 51 TYR B 53 SITE 1 AC3 16 GLU A 180 PRO B 83 THR B 84 PRO B 85 SITE 2 AC3 16 GLY B 109 TYR B 111 GLU B 112 GLY B 113 SITE 3 AC3 16 SER B 132 ILE B 133 GLY B 134 TYR B 136 SITE 4 AC3 16 LEU B 138 ASN B 139 GLY B 140 GLY B 141 CRYST1 75.334 78.254 88.005 90.00 90.00 90.00 P 21 21 21 8 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.013274 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012779 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011363 0.00000